Recipe: 696 JPred structs

created by gramps

Profile

• Name: 696 JPred structs
• ID: 45871
• Shared with: Public
• Parent: None
• Children: None
• Created on: April 04, 2013 at 14:57 PM UTC
• Updated on: April 04, 2013 at 14:57 PM UTC
• Description:

  yields the JPred structs predicted from the puzzle 696 AA sequence

Code

newprog = "696 JPred structs"
--
-- autogenerated code

local Struct_Types = {
["L"] = "Loop",
["E"] = "Sheet",
["H"] = "Helix",
["M"] = "Ligand" }

function Make_All_Loop()
  selection.SelectAll()
  structure.SetSecondaryStructureSelected("L")
  print("everything has been changed to a loop")
  selection.DeselectAll()
end -- function Make_All_Loop

function Restore_One_Stuct(s_start,s_end,s_type)
selection.SelectRange(s_start,s_end)
print(Struct_Types[s_type].."("..s_start..","..s_end..")")
structure.SetSecondaryStructureSelected(s_type)
selection.DeselectAll()
end -- function Restore_One_Stuct

function Restore_Structs()
  Restore_One_Stuct(1,72,"L")
  Restore_One_Stuct(73,73,"E")
  Restore_One_Stuct(74,76,"L")
  Restore_One_Stuct(77,89,"H")
  Restore_One_Stuct(90,94,"L")
  Restore_One_Stuct(95,104,"H")
  Restore_One_Stuct(105,110,"L")
  Restore_One_Stuct(111,115,"E")
  Restore_One_Stuct(116,125,"H")
  Restore_One_Stuct(126,127,"L")
end -- function Restore_Structs

print("begin ",newprog)

if structure.GetCount() == 	127	 then -- num segs match
  Make_All_Loop()
  Restore_Structs()
else -- print warning line
  print("segment number mismatch -- no action taken")
end

print("end ",newprog)

Comments

[gramps]

begin 696 JPred structs
everything has been changed to a loop
Loop(1,72)
Sheet(73,73)
Loop(74,76)
Helix(77,89)
Loop(90,94)
Helix(95,104)
Loop(105,110)
Sheet(111,115)
Helix(116,125)
Loop(126,127)
end 696 JPred structs

Structures only towards the back C- end, at least this is a start, editing in structure mode likely useful

JPred HTML (fwiw, only up for another day or so:
http://www.compbio.dundee.ac.uk/www-jpred/results/jp_8x5SuI9/jp_8x5SuI9.html

puzzle 696 page:
http://fold.it/portal/node/994891